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Monica Messina
3/10/16
GeneChip® Human Transcriptome Array 2.0
Dear Cheng, we would like to use the HTA arrays. Is it possible to analyze HTA data by dChip software
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GeneChip® Human Transcriptome Array 2.0
Dear Cheng, we would like to use the HTA arrays. Is it possible to analyze HTA data by dChip software
3/10/16
wingtec
6/25/15
volcano plots?
Can someone tell me if dChip can make volcano plots? Thanks much Wing
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volcano plots?
Can someone tell me if dChip can make volcano plots? Thanks much Wing
6/25/15
Charles Mullighan
, …
Dee Cronin Fenton
8
8/25/14
Cytoscan HD array
Dear Cheng, I am using dChip for microRNA analyses. I have loaded R but the link on the dChip webpage
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Cytoscan HD array
Dear Cheng, I am using dChip for microRNA analyses. I have loaded R but the link on the dChip webpage
8/25/14
eajanssen
2
2/13/13
CSv files for Illumina Human-6 v3 Expression BeadChip
Dear Cheng Li, Currently I allways get an error message if I want to open "classify samples
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CSv files for Illumina Human-6 v3 Expression BeadChip
Dear Cheng Li, Currently I allways get an error message if I want to open "classify samples
2/13/13
greenhand
2
1/3/13
information file
Dear Cheng, One more question, can dChip export the original expression data with annotation or it
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information file
Dear Cheng, One more question, can dChip export the original expression data with annotation or it
1/3/13
Jai Prakash Mehta
10/22/12
CDF for Bovine Gene ST array (dCHIP not accepting PGF file)
Hi Cheng, I am working on Bovine Gene ST 1.0 arrays. dCHIP is not accepting pgf. Error: Cannot find
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CDF for Bovine Gene ST array (dCHIP not accepting PGF file)
Hi Cheng, I am working on Bovine Gene ST 1.0 arrays. dCHIP is not accepting pgf. Error: Cannot find
10/22/12
Xin Lu
,
Cheng Li
2
8/14/12
truncate to 1 before log2 transform while loading data?
Xin, The option is for raw expression values and therefore not application to values < 1. You may
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truncate to 1 before log2 transform while loading data?
Xin, The option is for raw expression values and therefore not application to values < 1. You may
8/14/12
wingtec
7/26/12
can windows 64 bit run dCHip 32bit versions
Hi all, I wonder if anyone could tell me if my new Windows 7 at 64 bit can run older version of dChip
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can windows 64 bit run dCHip 32bit versions
Hi all, I wonder if anyone could tell me if my new Windows 7 at 64 bit can run older version of dChip
7/26/12
Hae-Won Chung
,
Cheng Li
3
7/24/12
New gene information file does not work!(MOE403A)
Thanks Cheng. It's perfect. On Tuesday, July 24, 2012 11:39:15 AM UTC-5, Cheng Li wrote: Hae-Won,
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New gene information file does not work!(MOE403A)
Thanks Cheng. It's perfect. On Tuesday, July 24, 2012 11:39:15 AM UTC-5, Cheng Li wrote: Hae-Won,
7/24/12
Dee Cronin Fenton
7/12/12
dChip on a laptop & problems with R
Hi Cheng & dChip users! I am using dChip for miRNA profiling analyses. I first use ANOVA, which
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dChip on a laptop & problems with R
Hi Cheng & dChip users! I am using dChip for miRNA profiling analyses. I first use ANOVA, which
7/12/12
Deeksha
7/5/12
Re : normalization and filtering through dchip
Hi I am done with the normalization and filtering part and now i want to export the expression values
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Re : normalization and filtering through dchip
Hi I am done with the normalization and filtering part and now i want to export the expression values
7/5/12
Deeksha
, …
Jai Prakash Mehta
4
7/4/12
Re : Filtering of data
Deeksha i think what u are looking for is exporting the expression values too. go to Tools ==>
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Re : Filtering of data
Deeksha i think what u are looking for is exporting the expression values too. go to Tools ==>
7/4/12
Eric Flores
,
simon
2
6/28/12
Selection of gene expression analysis and data mining software
Hi all and Cheng, For some reason, we have to dig out old expression chip HG U95A. When I opened
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Selection of gene expression analysis and data mining software
Hi all and Cheng, For some reason, we have to dig out old expression chip HG U95A. When I opened
6/28/12
ccye...@gmail.com
,
Cheng Li
2
6/19/12
Combined different GEO data
Yen, No. See Item 7 (within chip-type standardization) at this link: http://biosun1.harvard.edu/
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Combined different GEO data
Yen, No. See Item 7 (within chip-type standardization) at this link: http://biosun1.harvard.edu/
6/19/12
majed
5/7/12
failing the Chr analysis sauit softwear QC
i am working on Cytoscan array, in each experiment i have failed samples in QC check and some passed
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failing the Chr analysis sauit softwear QC
i am working on Cytoscan array, in each experiment i have failed samples in QC check and some passed
5/7/12
RDR
4/11/12
Export gene list
How can I export the list of genes from "hot spots" in the chromosome view which was
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Export gene list
How can I export the list of genes from "hot spots" in the chromosome view which was
4/11/12
AGH
4/2/12
dChip message: Not a CDF file or not in text format
Hello, I'm trying to open a group of Affymetrix HG-U219 arrays and I'm selecting a CDF file
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dChip message: Not a CDF file or not in text format
Hello, I'm trying to open a group of Affymetrix HG-U219 arrays and I'm selecting a CDF file
4/2/12
ccye...@gmail.com
, …
Cheng Li
3
2/21/12
Cannot read GSE file
Yen, We don't have an updated dchip to handle the new GO files. You may analyze your gene lists,
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Cannot read GSE file
Yen, We don't have an updated dchip to handle the new GO files. You may analyze your gene lists,
2/21/12
Cheng Li
1/18/12
Running dChip in compatibility mode of Windows 7
日期: January 18, 2012 1:25:01 PM EST 收件人: Cheng Li <lch...@gmail.com> So far it is working
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Running dChip in compatibility mode of Windows 7
日期: January 18, 2012 1:25:01 PM EST 收件人: Cheng Li <lch...@gmail.com> So far it is working
1/18/12
AP
,
Jai Prakash Mehta
4
12/6/11
displaying gene symbols not gene names in heatmaps
OK it worked!...I uploaded the modified .xls file for others if they find it useful too at http://www
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displaying gene symbols not gene names in heatmaps
OK it worked!...I uploaded the modified .xls file for others if they find it useful too at http://www
12/6/11
xiaokuan
,
Cheng Li
2
12/2/11
how to read SNP CEL files without matched genetype call files (TXT file)
Xiaokuan, Please see the note [V5/29/06+] here: http://biosun1.harvard.edu/complab/dchip/snp.htm#
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how to read SNP CEL files without matched genetype call files (TXT file)
Xiaokuan, Please see the note [V5/29/06+] here: http://biosun1.harvard.edu/complab/dchip/snp.htm#
12/2/11
Vassilios Bezzerides
,
Cheng Li
4
11/19/11
Difficulty with loading Rat ST 1.0 cdf files
Hi Vassilios, Please see this link for gene info file for ST arrays: http://sites.google.com/site/
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Difficulty with loading Rat ST 1.0 cdf files
Hi Vassilios, Please see this link for gene info file for ST arrays: http://sites.google.com/site/
11/19/11
joshua_l
,
Cheng Li
3
11/18/11
Problem loading hg19 refGene/fefFlat file
Hi Cheng, Thank you for the updated version, and loading the refGene/refFlat file is fine. However,
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Problem loading hg19 refGene/fefFlat file
Hi Cheng, Thank you for the updated version, and loading the refGene/refFlat file is fine. However,
11/18/11
SGTC_Julie
,
顏厥全
2
11/15/11
can dChip run on Windows 7?
Sure!! Yen CC 2011/11/16 SGTC_Julie <julie.w...@gmail.com> Can dChip run on Windows 7? --
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can dChip run on Windows 7?
Sure!! Yen CC 2011/11/16 SGTC_Julie <julie.w...@gmail.com> Can dChip run on Windows 7? --
11/15/11
sigrid.rouam
,
Cheng Li
3
11/2/11
loading CEL files in dChip
Hi Cheng, Thank you for your reply. I tried to add the .txt suffix but I got a new error message (see
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loading CEL files in dChip
Hi Cheng, Thank you for your reply. I tried to add the .txt suffix but I got a new error message (see
11/2/11
Tamil Azhagan
,
Cheng Li
2
11/1/11
Gene Symbol in different Genome builds matching with SNP array data
Tamil, Can you give specific steps and examples that lead to the difference? eg which files or
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Gene Symbol in different Genome builds matching with SNP array data
Tamil, Can you give specific steps and examples that lead to the difference? eg which files or
11/1/11
Kathy
10/25/11
Question about LOH data(import to GISTIC) from dChip
Hi! Dr. Li: I have visited your CaSNP database. It provided very useful information. I have a
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Question about LOH data(import to GISTIC) from dChip
Hi! Dr. Li: I have visited your CaSNP database. It provided very useful information. I have a
10/25/11
Subarna Sinha
10/14/11
Copy number generation from SNP arrays
Dear Cheng, I have a few questions about using dChip for inferring copy number from Affymetrix SNP6
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Copy number generation from SNP arrays
Dear Cheng, I have a few questions about using dChip for inferring copy number from Affymetrix SNP6
10/14/11
Laura
10/10/11
Negative expression values on Affy array
Hi, I have questions about how to use (and perhaps whether to use) negative expression values
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Negative expression values on Affy array
Hi, I have questions about how to use (and perhaps whether to use) negative expression values
10/10/11
jai
9/16/11
Alternate Splicing: Want to know a bit of stats behind that.
Hi, I am using Human exon array to find alternate splicing. Everything is going perfecty. And I am
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Alternate Splicing: Want to know a bit of stats behind that.
Hi, I am using Human exon array to find alternate splicing. Everything is going perfecty. And I am
9/16/11